Alfalfa Gene Editing Database
Alfalfa Gene Editing Database
Nr:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene71334.t1 | RHN67353.1 | 95.5 | 336 | 7 | 2 | 1 | 328 | 58 | 393 | 5.30E-164 | 587 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene71334.t1 | Q39218 | 65.8 | 333 | 106 | 2 | 4 | 328 | 59 | 391 | 1.9e-109 | 397.1 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene71334.t1 | A0A072UX64 | 95.5 | 336 | 7 | 2 | 1 | 328 | 1 | 336 | 3.8e-164 | 587.0 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MS.gene053494 | MS.gene71334 | 0.814791 | 1.29E-51 | -1.69E-46 |
| MS.gene05556 | MS.gene71334 | 0.808381 | 3.18E-50 | -1.69E-46 |
| MS.gene055701 | MS.gene71334 | 0.816545 | 5.23E-52 | -1.69E-46 |
| MS.gene059868 | MS.gene71334 | 0.8054 | 1.36E-49 | -1.69E-46 |
PPI:
| Gene1 | Gene2 | Type |
|---|
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene71334.t1 | MTR_3g058410 | 95.536 | 336 | 7 | 2 | 1 | 328 | 1 | 336 | 0.0 | 653 |
| MS.gene71334.t1 | MTR_5g095470 | 71.987 | 307 | 84 | 1 | 22 | 328 | 17 | 321 | 1.56e-160 | 451 |
| MS.gene71334.t1 | MTR_8g028040 | 67.897 | 271 | 87 | 0 | 58 | 328 | 28 | 298 | 1.02e-135 | 387 |
| MS.gene71334.t1 | MTR_5g023760 | 54.118 | 255 | 112 | 1 | 62 | 316 | 55 | 304 | 8.54e-97 | 289 |
| MS.gene71334.t1 | MTR_5g023760 | 54.118 | 255 | 112 | 1 | 62 | 316 | 55 | 304 | 8.85e-97 | 290 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene71334.t1 | AT3G13110 | 66.071 | 336 | 106 | 2 | 1 | 328 | 56 | 391 | 2.88e-163 | 461 |
| MS.gene71334.t1 | AT1G55920 | 67.173 | 329 | 92 | 5 | 1 | 328 | 1 | 314 | 9.31e-156 | 439 |
| MS.gene71334.t1 | AT5G56760 | 66.418 | 268 | 89 | 1 | 62 | 328 | 45 | 312 | 2.17e-128 | 369 |
| MS.gene71334.t1 | AT4G35640 | 59.608 | 255 | 98 | 1 | 62 | 316 | 73 | 322 | 1.31e-97 | 293 |
| MS.gene71334.t1 | AT2G17640 | 56.078 | 255 | 107 | 1 | 62 | 316 | 36 | 285 | 1.50e-92 | 278 |
Find 55 sgRNAs with CRISPR-Local
Find 70 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TAGCACTCTTGATTCAAAAT+AGG | 0.224483 | 3.3:-47387999 | MS.gene71334:CDS |
| TAAGATTCCTAGCTTTACTA+TGG | 0.312301 | 3.3:-47387620 | MS.gene71334:CDS |
| AGCACTCTTGATTCAAAATA+GGG | 0.312531 | 3.3:-47387998 | MS.gene71334:CDS |
| TATTCATGAAAAGATCAAAA+AGG | 0.323626 | 3.3:+47388196 | None:intergenic |
| TGCTGGTTCTGTTGTGTTGA+AGG | 0.345531 | 3.3:-47387719 | MS.gene71334:CDS |
| ATAGGGTAGCACATAAATTA+TGG | 0.348520 | 3.3:-47388041 | MS.gene71334:CDS |
| AAATAATAGCTAGATAAAAT+TGG | 0.349783 | 3.3:+47388309 | None:intergenic |
| AAAACACCATCACCAATCTT+AGG | 0.354890 | 3.3:+47387802 | None:intergenic |
| TTTCCAACAGCAGTAGTTCT+TGG | 0.373815 | 3.3:+47387688 | None:intergenic |
| TCATGTTGATGAGGAATGTT+TGG | 0.409626 | 3.3:+47388495 | None:intergenic |
| CATTGTTTGTTGAATTTCAA+AGG | 0.415772 | 3.3:-47388084 | MS.gene71334:CDS |
| TTTCCACCAATCAACTTAGC+TGG | 0.422664 | 3.3:+47387664 | None:intergenic |
| ATTCAGAGATATATGAAGTA+TGG | 0.423521 | 3.3:+47387596 | None:intergenic |
| AATGTTACATTAGGTGGAAC+TGG | 0.429863 | 3.3:-47387847 | MS.gene71334:CDS |
| GGAATCTTATCCAACATGAT+AGG | 0.441623 | 3.3:+47387634 | None:intergenic |
| TTGCATAATGTTACATTAGG+TGG | 0.465580 | 3.3:-47387853 | MS.gene71334:CDS |
| AATTTGACAAAATTGAATGA+AGG | 0.466844 | 3.3:+47388468 | None:intergenic |
| GGGAATATTAAGATTGGTGA+TGG | 0.475849 | 3.3:-47387754 | MS.gene71334:CDS |
| ATTTGACAAAATTGAATGAA+GGG | 0.478931 | 3.3:+47388469 | None:intergenic |
| TTTGCTGTTGATATTCATCC+TGG | 0.479478 | 3.3:-47387964 | MS.gene71334:CDS |
| ATGTTTGGTTTGCGAGAAGG+AGG | 0.480198 | 3.3:+47388510 | None:intergenic |
| ATTCATCCTGGTGCTAAGAT+TGG | 0.483510 | 3.3:-47387952 | MS.gene71334:CDS |
| TTTGGTTTGCGAGAAGGAGG+AGG | 0.492117 | 3.3:+47388513 | None:intergenic |
| GGTGGAACTGGTAAGGTTTG+TGG | 0.495507 | 3.3:-47387835 | MS.gene71334:CDS |
| CATGATTATGTGAAAAGGGT+CGG | 0.498203 | 3.3:+47388442 | None:intergenic |
| TTTAGCTTGTCAAGCTCATA+GGG | 0.501441 | 3.3:-47388058 | MS.gene71334:CDS |
| TACATTAGGTGGAACTGGTA+AGG | 0.504651 | 3.3:-47387842 | MS.gene71334:CDS |
| ATACTTCATATATCTCTGAA+TGG | 0.510821 | 3.3:-47387594 | MS.gene71334:CDS |
| CCAACAGCAGTAGTTCTTGG+TGG | 0.511345 | 3.3:+47387691 | None:intergenic |
| TTGGTTTGCGAGAAGGAGGA+GGG | 0.517344 | 3.3:+47388514 | None:intergenic |
| GGAAATCCAGCTAAGTTGAT+TGG | 0.518731 | 3.3:-47387670 | MS.gene71334:CDS |
| TGAACATAGCTTATACAAGC+AGG | 0.523004 | 3.3:+47388105 | None:intergenic |
| CCTGGTGCTAAGATTGGTAG+AGG | 0.530740 | 3.3:-47387946 | MS.gene71334:CDS |
| GATGGTGCTAAGATTGGTGC+TGG | 0.531503 | 3.3:-47387736 | MS.gene71334:CDS |
| CCACCAAGAACTACTGCTGT+TGG | 0.532511 | 3.3:-47387691 | MS.gene71334:CDS |
| GATTCAAAATAGGGTTTCTG+AGG | 0.537609 | 3.3:-47387989 | MS.gene71334:CDS |
| CATGCAACAGGAGTTGTTGT+TGG | 0.540340 | 3.3:-47387910 | MS.gene71334:CDS |
| CCTCTACCAATCTTAGCACC+AGG | 0.543694 | 3.3:+47387946 | None:intergenic |
| GCACATAAATTATGGTTACA+AGG | 0.545610 | 3.3:-47388033 | MS.gene71334:CDS |
| GGAATGTTTGGTTTGCGAGA+AGG | 0.546386 | 3.3:+47388507 | None:intergenic |
| ATTGGTGATGGTGCTAAGAT+TGG | 0.547373 | 3.3:-47387742 | MS.gene71334:CDS |
| AAAAGATAATCCTATCATGT+TGG | 0.560483 | 3.3:-47387644 | MS.gene71334:CDS |
| GTATGGTCCATAGTAAAGCT+AGG | 0.573050 | 3.3:+47387613 | None:intergenic |
| AATCCAGCTAAGTTGATTGG+TGG | 0.576016 | 3.3:-47387667 | MS.gene71334:CDS |
| TGAAGATTCAAGAAGAAGCA+AGG | 0.580645 | 3.3:-47388350 | MS.gene71334:CDS |
| GGTGATAGACATCCTAAGAT+TGG | 0.586606 | 3.3:-47387814 | MS.gene71334:CDS |
| GTTGGTGAAACTGCTGTGGT+TGG | 0.586963 | 3.3:-47387892 | MS.gene71334:CDS |
| ATCATGATAAGGCTGATTTG+TGG | 0.599486 | 3.3:-47388374 | MS.gene71334:CDS |
| CACATAAATTATGGTTACAA+GGG | 0.608763 | 3.3:-47388032 | MS.gene71334:CDS |
| GAAGGGTCATCATGTTGATG+AGG | 0.610233 | 3.3:+47388486 | None:intergenic |
| TGTTGTTGGTGAAACTGCTG+TGG | 0.630588 | 3.3:-47387896 | MS.gene71334:CDS |
| GAACATAGCTTATACAAGCA+GGG | 0.631384 | 3.3:+47388106 | None:intergenic |
| TGGTTTGCGAGAAGGAGGAG+GGG | 0.643319 | 3.3:+47388515 | None:intergenic |
| AGACATCCTAAGATTGGTGA+TGG | 0.645064 | 3.3:-47387808 | MS.gene71334:CDS |
| CTGGTGCTAAGATTGGTAGA+GGG | 0.695256 | 3.3:-47387945 | MS.gene71334:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | AAATAATAGCTAGATAAAAT+TGG | + | chr3.3:47387810-47387829 | None:intergenic | 15.0% |
| !! | AATTTGACAAAATTGAATGA+AGG | + | chr3.3:47387651-47387670 | None:intergenic | 20.0% |
| !! | ATTCATGAAAAGATCAAAAA+GGG | + | chr3.3:47387922-47387941 | None:intergenic | 20.0% |
| !! | ATTTGACAAAATTGAATGAA+GGG | + | chr3.3:47387650-47387669 | None:intergenic | 20.0% |
| !! | TATTCATGAAAAGATCAAAA+AGG | + | chr3.3:47387923-47387942 | None:intergenic | 20.0% |
| !!! | ATTTTAGGGAATATTAAGAT+TGG | - | chr3.3:47388356-47388375 | MS.gene71334:CDS | 20.0% |
| !!! | ATTTTGCATAATGTTACATT+AGG | - | chr3.3:47388260-47388279 | MS.gene71334:CDS | 20.0% |
| !!! | TTTTCATGATTATGTGAAAA+GGG | + | chr3.3:47387681-47387700 | None:intergenic | 20.0% |
| !!! | TTTTTCATGATTATGTGAAA+AGG | + | chr3.3:47387682-47387701 | None:intergenic | 20.0% |
| ! | AAAAAAACATGCATACACAA+AGG | - | chr3.3:47387697-47387716 | MS.gene71334:CDS | 25.0% |
| ! | AAAAAACATGCATACACAAA+GGG | - | chr3.3:47387698-47387717 | MS.gene71334:CDS | 25.0% |
| ! | AAAAGATAATCCTATCATGT+TGG | - | chr3.3:47388472-47388491 | MS.gene71334:CDS | 25.0% |
| ! | ATACTTCATATATCTCTGAA+TGG | - | chr3.3:47388522-47388541 | MS.gene71334:CDS | 25.0% |
| ! | ATTCAGAGATATATGAAGTA+TGG | + | chr3.3:47388523-47388542 | None:intergenic | 25.0% |
| ! | CACATAAATTATGGTTACAA+GGG | - | chr3.3:47388084-47388103 | MS.gene71334:CDS | 25.0% |
| !! | CATTGTTTGTTGAATTTCAA+AGG | - | chr3.3:47388032-47388051 | MS.gene71334:CDS | 25.0% |
| !! | TTTTGAACATGATCATGATA+AGG | - | chr3.3:47387731-47387750 | MS.gene71334:CDS | 25.0% |
| AGCACTCTTGATTCAAAATA+GGG | - | chr3.3:47388118-47388137 | MS.gene71334:CDS | 30.0% | |
| ATAGGGTAGCACATAAATTA+TGG | - | chr3.3:47388075-47388094 | MS.gene71334:CDS | 30.0% | |
| GCACATAAATTATGGTTACA+AGG | - | chr3.3:47388083-47388102 | MS.gene71334:CDS | 30.0% | |
| TAGCACTCTTGATTCAAAAT+AGG | - | chr3.3:47388117-47388136 | MS.gene71334:CDS | 30.0% | |
| TTGCATAATGTTACATTAGG+TGG | - | chr3.3:47388263-47388282 | MS.gene71334:CDS | 30.0% | |
| !! | TAAGATTCCTAGCTTTACTA+TGG | - | chr3.3:47388496-47388515 | MS.gene71334:CDS | 30.0% |
| AAAACACCATCACCAATCTT+AGG | + | chr3.3:47388317-47388336 | None:intergenic | 35.0% | |
| AATGTTACATTAGGTGGAAC+TGG | - | chr3.3:47388269-47388288 | MS.gene71334:CDS | 35.0% | |
| CATGATTATGTGAAAAGGGT+CGG | + | chr3.3:47387677-47387696 | None:intergenic | 35.0% | |
| GAACATAGCTTATACAAGCA+GGG | + | chr3.3:47388013-47388032 | None:intergenic | 35.0% | |
| GATTCAAAATAGGGTTTCTG+AGG | - | chr3.3:47388127-47388146 | MS.gene71334:CDS | 35.0% | |
| GGAATCTTATCCAACATGAT+AGG | + | chr3.3:47388485-47388504 | None:intergenic | 35.0% | |
| GGGAATATTAAGATTGGTGA+TGG | - | chr3.3:47388362-47388381 | MS.gene71334:CDS | 35.0% | |
| TGAACATAGCTTATACAAGC+AGG | + | chr3.3:47388014-47388033 | None:intergenic | 35.0% | |
| TGAAGATTCAAGAAGAAGCA+AGG | - | chr3.3:47387766-47387785 | MS.gene71334:CDS | 35.0% | |
| ! | ATTTTGTTGGATCATGCAAC+AGG | - | chr3.3:47388194-47388213 | MS.gene71334:CDS | 35.0% |
| ! | GTGCTGGAACATGTATTTTA+GGG | - | chr3.3:47388342-47388361 | MS.gene71334:CDS | 35.0% |
| ! | TCATGTTGATGAGGAATGTT+TGG | + | chr3.3:47387624-47387643 | None:intergenic | 35.0% |
| !! | ATCATGATAAGGCTGATTTG+TGG | - | chr3.3:47387742-47387761 | MS.gene71334:CDS | 35.0% |
| !! | TTTAGCTTGTCAAGCTCATA+GGG | - | chr3.3:47388058-47388077 | MS.gene71334:CDS | 35.0% |
| !! | TTTGCTGTTGATATTCATCC+TGG | - | chr3.3:47388152-47388171 | MS.gene71334:CDS | 35.0% |
| !!! | ATTGGTGATGGTGTTTTGAT+TGG | - | chr3.3:47388320-47388339 | MS.gene71334:CDS | 35.0% |
| !!! | TTTTAGCTTGTCAAGCTCAT+AGG | - | chr3.3:47388057-47388076 | MS.gene71334:CDS | 35.0% |
| AGACATCCTAAGATTGGTGA+TGG | - | chr3.3:47388308-47388327 | MS.gene71334:CDS | 40.0% | |
| GGTGATAGACATCCTAAGAT+TGG | - | chr3.3:47388302-47388321 | MS.gene71334:CDS | 40.0% | |
| GTATGGTCCATAGTAAAGCT+AGG | + | chr3.3:47388506-47388525 | None:intergenic | 40.0% | |
| TACATTAGGTGGAACTGGTA+AGG | - | chr3.3:47388274-47388293 | MS.gene71334:CDS | 40.0% | |
| TTTCCAACAGCAGTAGTTCT+TGG | + | chr3.3:47388431-47388450 | None:intergenic | 40.0% | |
| TTTCCACCAATCAACTTAGC+TGG | + | chr3.3:47388455-47388474 | None:intergenic | 40.0% | |
| ! | ATTCATCCTGGTGCTAAGAT+TGG | - | chr3.3:47388164-47388183 | MS.gene71334:CDS | 40.0% |
| ! | GATTGGTAGAGGGATTTTGT+TGG | - | chr3.3:47388181-47388200 | MS.gene71334:CDS | 40.0% |
| !! | AATCCAGCTAAGTTGATTGG+TGG | - | chr3.3:47388449-47388468 | MS.gene71334:CDS | 40.0% |
| !! | ATTGGTGATGGTGCTAAGAT+TGG | - | chr3.3:47388374-47388393 | MS.gene71334:CDS | 40.0% |
| !! | GGAAATCCAGCTAAGTTGAT+TGG | - | chr3.3:47388446-47388465 | MS.gene71334:CDS | 40.0% |
| !! | GGTGCTGGAACATGTATTTT+AGG | - | chr3.3:47388341-47388360 | MS.gene71334:CDS | 40.0% |
| CATGCAACAGGAGTTGTTGT+TGG | - | chr3.3:47388206-47388225 | MS.gene71334:CDS | 45.0% | |
| GAAGGGTCATCATGTTGATG+AGG | + | chr3.3:47387633-47387652 | None:intergenic | 45.0% | |
| ! | CTGGTGCTAAGATTGGTAGA+GGG | - | chr3.3:47388171-47388190 | MS.gene71334:CDS | 45.0% |
| ! | TGTTGTTGGTGAAACTGCTG+TGG | - | chr3.3:47388220-47388239 | MS.gene71334:CDS | 45.0% |
| !! | ATGTTTGGTTTGCGAGAAGG+AGG | + | chr3.3:47387609-47387628 | None:intergenic | 45.0% |
| !! | GGAATGTTTGGTTTGCGAGA+AGG | + | chr3.3:47387612-47387631 | None:intergenic | 45.0% |
| !! | TGCTGGTTCTGTTGTGTTGA+AGG | - | chr3.3:47388397-47388416 | MS.gene71334:CDS | 45.0% |
| !!! | GATGGTGTTTTGATTGGTGC+TGG | - | chr3.3:47388326-47388345 | MS.gene71334:CDS | 45.0% |
| CCAACAGCAGTAGTTCTTGG+TGG | + | chr3.3:47388428-47388447 | None:intergenic | 50.0% | |
| CCACCAAGAACTACTGCTGT+TGG | - | chr3.3:47388425-47388444 | MS.gene71334:CDS | 50.0% | |
| CCTCTACCAATCTTAGCACC+AGG | + | chr3.3:47388173-47388192 | None:intergenic | 50.0% | |
| GGTGGAACTGGTAAGGTTTG+TGG | - | chr3.3:47388281-47388300 | MS.gene71334:CDS | 50.0% | |
| ! | CCTGGTGCTAAGATTGGTAG+AGG | - | chr3.3:47388170-47388189 | MS.gene71334:CDS | 50.0% |
| ! | GATGGTGCTAAGATTGGTGC+TGG | - | chr3.3:47388380-47388399 | MS.gene71334:CDS | 50.0% |
| ! | GTTGGTGAAACTGCTGTGGT+TGG | - | chr3.3:47388224-47388243 | MS.gene71334:CDS | 50.0% |
| !! | TTGGTTTGCGAGAAGGAGGA+GGG | + | chr3.3:47387605-47387624 | None:intergenic | 50.0% |
| !! | TTTGGTTTGCGAGAAGGAGG+AGG | + | chr3.3:47387606-47387625 | None:intergenic | 50.0% |
| ! | TGGTTTGCGAGAAGGAGGAG+GGG | + | chr3.3:47387604-47387623 | None:intergenic | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3.3 | gene | 47387576 | 47388562 | 47387576 | ID=MS.gene71334 |
| chr3.3 | mRNA | 47387576 | 47388562 | 47387576 | ID=MS.gene71334.t1;Parent=MS.gene71334 |
| chr3.3 | exon | 47387576 | 47388562 | 47387576 | ID=MS.gene71334.t1.exon1;Parent=MS.gene71334.t1 |
| chr3.3 | CDS | 47387576 | 47388562 | 47387576 | ID=cds.MS.gene71334.t1;Parent=MS.gene71334.t1 |
| Gene Sequence |
| Protein sequence |
